From 378ba4956f24466623b02280c2afb4e13153f1f3 Mon Sep 17 00:00:00 2001 From: Max Zwiessele Date: Mon, 3 Oct 2016 12:55:18 +0100 Subject: [PATCH] chg: pkg: CHANGELOG update --- CHANGELOG.md | 2029 ++++++++++++++++++++++++-------------------------- 1 file changed, 993 insertions(+), 1036 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index b9c1c51c..4125feb9 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,13 +1,63 @@ # Changelog -## v1.5.3 (2016-09-06) +## %%__version__%% (unreleased) + +### New + +* Added deployment pull request instructions for developers. [mzwiessele] + +* Using gitchangelog to keep track of changes and log new features. [mzwiessele] + +### Changes + +* Version update on paramz. [Max Zwiessele] + +* Fixed naming in variational priors : [Max Zwiessele] + +* Changelog update. [mzwiessele] + +### Fix + +* Bug in dataset (in fn download_url) which wrongly interprets the Content-Length meta data, and just takes first character. [Michael T Smith] + +* What's new update fix #425 in changelog. [mzwiessele] ### Other +* Bump version: 1.5.3 → 1.5.4. [Max Zwiessele] + +* Merge pull request #443 from SheffieldML/dataset_download_url_bugfix. [Max Zwiessele] + + fix: Bug in datasets.py + +* Merge branch 'kurtCutajar-devel' into devel. [mzwiessele] + * Bump version: 1.5.2 → 1.5.3. [mzwiessele] * Merge branch 'devel' into kurtCutajar-devel. [mzwiessele] +* Bump version: 1.5.1 → 1.5.2. [mzwiessele] + +* Minor readme changes. [mzwiessele] + +* Bump version: 1.5.0 → 1.5.1. [mzwiessele] + +* Bump version: 1.4.3 → 1.5.0. [mzwiessele] + +* Bump version: 1.4.2 → 1.4.3. [mzwiessele] + +* Bump version: 1.4.1 → 1.4.2. [mzwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [mzwiessele] + +* [kern] fix #440. [mzwiessele] + +* Bump version: 1.4.0 → 1.4.1. [mzwiessele] + +* [setup] added bumpversion tagging again. [mzwiessele] + +* [mrd] init updates and added tests. [mzwiessele] + * [doc] cleanup. [mzwiessele] * [merge] into new devel. [Max Zwiessele] @@ -40,74 +90,6 @@ * Added core code for GpSSM and GpGrid. [kcutajar] - -## v1.5.2 (2016-09-06) - -### New - -* Added deployment pull request instructions for developers. [mzwiessele] - -### Other - -* Bump version: 1.5.1 → 1.5.2. [mzwiessele] - -* Minor readme changes. [mzwiessele] - - -## v1.5.1 (2016-09-06) - -### Fix - -* What's new update fix #425 in changelog. [mzwiessele] - -### Other - -* Bump version: 1.5.0 → 1.5.1. [mzwiessele] - - -## v1.5.0 (2016-09-06) - -### New - -* Using gitchangelog to keep track of changes and log new features. [mzwiessele] - -### Other - -* Bump version: 1.4.3 → 1.5.0. [mzwiessele] - - -## v1.4.3 (2016-09-06) - -### Changes - -* Changelog update. [mzwiessele] - -### Other - -* Bump version: 1.4.2 → 1.4.3. [mzwiessele] - - -## v1.4.2 (2016-09-06) - -### Other - -* Bump version: 1.4.1 → 1.4.2. [mzwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [mzwiessele] - -* [kern] fix #440. [mzwiessele] - - -## v1.4.1 (2016-09-06) - -### Other - -* Bump version: 1.4.0 → 1.4.1. [mzwiessele] - -* [setup] added bumpversion tagging again. [mzwiessele] - -* [mrd] init updates and added tests. [mzwiessele] - * Merge pull request #356 from SheffieldML/binomial_laplace. [Max Zwiessele] Binomial laplace #352 @@ -510,6 +492,18 @@ * Merge branch 'deploy' into devel. [Max Zwiessele] +* Merge pull request #368 from SheffieldML/devel. [Max Zwiessele] + + README of pypi now directly in setup + +* Merge pull request #367 from SheffieldML/devel. [Max Zwiessele] + + Update setup to fix problems with slicing + +* Merge pull request #365 from SheffieldML/devel. [Max Zwiessele] + + patch 1.0.5 + * [py3] iterator .next fixes. [Max Zwiessele] * [imports] fix #392. [Max Zwiessele] @@ -578,6 +572,14 @@ * Add eq_ode1 kern and ibp_lfm model. [cdguarnizo] +* Bump version: 1.0.8 → 1.0.9. [mzwiessele] + +* [setxy] was bugged. [mzwiessele] + +* Bump version: 1.0.7 → 1.0.8. [mzwiessele] + +* [examples] dim reduction plotting changes. [Max Zwiessele] + * Integral kernels added, these allow 'histogram' or 'binned' data to be modelled. [Michael T Smith] * Fixed bug, replaced for loops with einsum. [alessandratosi] @@ -596,6 +598,10 @@ * Merge branch devel into gradientsxx. [alessandratosi] +* [fix #380] reloading ep. [mzwiessele] + +* [fix #380] reloading ep. [mzwiessele] + * Fixed bug in kernel_tests for gradients_XX. [alessandratosi] * [slicing] fixed slicing for second order derivatives. [mzwiessele] @@ -604,40 +610,6 @@ * Merge branch 'devel' into gradientsxx. [mzwiessele] -* Bug fix. [alessandratosi] - -* Syntax fix. [alessandratosi] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into gradientsxx. [alessandratosi] - -* Modified kernel tests for gradients_XX. [alessandratosi] - -* Added kernel tests for gradients_XX. [alessandratosi] - -* Update function kern.gradients_XX() to compute cross-covariance terms. [alessandratosi] - - -## v1.0.9 (2016-05-11) - -### Other - -* Bump version: 1.0.8 → 1.0.9. [mzwiessele] - -* [setxy] was bugged. [mzwiessele] - - -## v1.0.8 (2016-05-11) - -### Other - -* Bump version: 1.0.7 → 1.0.8. [mzwiessele] - -* [examples] dim reduction plotting changes. [Max Zwiessele] - -* [fix #380] reloading ep. [mzwiessele] - -* [fix #380] reloading ep. [mzwiessele] - * Merge branch 'devel' into kenokabe-devel. [mzwiessele] * [statespace] omg. [mzwiessele] @@ -652,6 +624,12 @@ * [kernel addition] in statespace is bugged for py33 on mac, deactivating it. [mzwiessele] +* Bug fix. [alessandratosi] + +* Syntax fix. [alessandratosi] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into gradientsxx. [alessandratosi] + * [statespace] less restrictive test for regular statespace model. [Max Zwiessele] * [travis] condition. [Max Zwiessele] @@ -662,6 +640,12 @@ * Added precomputed kernel class. [vsaase] +* Modified kernel tests for gradients_XX. [alessandratosi] + +* Added kernel tests for gradients_XX. [alessandratosi] + +* Update function kern.gradients_XX() to compute cross-covariance terms. [alessandratosi] + * [readme] added landscape for code cleanines. [Max Zwiessele] * Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] @@ -674,15 +658,6 @@ * [tests] show skipped. [Max Zwiessele] - -## v1.0.7 (2016-04-12) - -### Other - -* Merge pull request #368 from SheffieldML/devel. [Max Zwiessele] - - README of pypi now directly in setup - * [tests] classification tests less strict (sporadic fails) [Max Zwiessele] * [tests] verbose in travis. [Max Zwiessele] @@ -697,31 +672,18 @@ * Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] -* [setup] readme in setup. [Max Zwiessele] - -* []README. [Max Zwiessele] - - -## v1.0.6 (2016-04-11) - -### Other - -* Merge pull request #367 from SheffieldML/devel. [Max Zwiessele] - - Update setup to fix problems with slicing - * Update __version__.py. [Max Zwiessele] * Update setup.cfg. [Max Zwiessele] * Update setup.py. [Max Zwiessele] +* [setup] readme in setup. [Max Zwiessele] + +* []README. [Max Zwiessele] + * [coverage] some more restrictions. [Max Zwiessele] -* Merge pull request #365 from SheffieldML/devel. [Max Zwiessele] - - patch 1.0.5 - * [config] softfail when config cannot be written. [Max Zwiessele] * Bump version: 1.0.4 → 1.0.5. [Max Zwiessele] @@ -2325,43 +2287,38 @@ * Merge branch 'master' into devel. [Max Zwiessele] -* Merge branch 'master' into devel. [Max Zwiessele] - -* Merge branch 'master' into devel. [Max Zwiessele] - -* Merge branch 'master' into devel. [Max Zwiessele] - -* Merge branch 'master' into devel. [Max Zwiessele] - -* Merge branch 'master' into devel. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Bug fix for set_XY. [Zhenwen Dai] - -* Add set_XY test. [Zhenwen Dai] - - -## v0.8.8 (2015-09-10) - -### Other - * Bump version: 0.8.7 → 0.8.8. [Max Zwiessele] +* Merge branch 'master' into devel. [Max Zwiessele] + * Bump version: 0.8.6 → 0.8.7. [Max Zwiessele] +* Merge branch 'master' into devel. [Max Zwiessele] + * [py3] print statement. [Max Zwiessele] +* Merge branch 'master' into devel. [Max Zwiessele] + * [pred_var] added predictive variable as property now. [Max Zwiessele] +* Merge branch 'master' into devel. [Max Zwiessele] + * Bump version: 0.8.5 → 0.8.6. [Max Zwiessele] +* Merge branch 'master' into devel. [Max Zwiessele] + * Merge branch 'master' of github.com:SheffieldML/GPy. [Max Zwiessele] * Apply bug fix for set_XY. [Zhenwen Dai] * Converting .md to .rst automatically now. [Max Zwiessele] +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Bug fix for set_XY. [Zhenwen Dai] + +* Add set_XY test. [Zhenwen Dai] + * Bump version: 0.8.4 → 0.8.5. [Max Zwiessele] * Merge pull request #240 from SheffieldML/devel. [Max Zwiessele] @@ -3744,786 +3701,6 @@ * [huge merge] trying to merge old master and master. [Max Zwiessele] -* Merge pull request #148 from martinsch/normalization_fix. [James Hensman] - -* Normalization: avoid division by zero for constant feature dimensions. [mschiegg] - -* Merge pull request #160 from slinderman/master. [James Hensman] - - Removing set of numpy random seed - - Great spot! We're just about to relase the next iteratino of GPy, we'll make sure it happens there too. - - Thanks. - -* Removing set of numpy random seed. [Scott Linderman] - -* Removed unnecessary spaces from citation. [Nicolo Fusi] - -* Added a way to cite. [Nicolo Fusi] - -* Modified logexp transformation to prevent it returning zero when argument is under -36. [Neil Lawrence] - -* Version change. [Max Zwiessele] - -* Dim reduction examples clearer and init not as much black magic anymore. [Max Zwiessele] - -* Plot_latent now shows selected inputs, even after switching dimensions. [Max Zwiessele] - -* Added hapmap3 as dataset. [Max Zwiessele] - -* Sparse gp stability improved. [Max Zwiessele] - -* HapMap3 dataset added. [Max Zwiessele] - -* Added hapmap download, need to put in data preprocessing for actual usability. [Max Zwiessele] - -* Dim reduction examples. [mzwiessele] - -* Dim reduction examples. [mzwiessele] - -* Bgplvm steepest gradient map update. [mzwiessele] - -* Bgplvm steepest gradient map update. [mzwiessele] - -* Merge branch 'master' of github.com:SheffieldML/GPy. [mzwiessele] - -* Update README.md with funding acknowledgements. [Neil Lawrence] - -* Plotting bug for bgplvm fixed. [mzwiessele] - -* Scg optimizer scale bounds back to 1e-15. [mzwiessele] - -* Parameterized: added warning switch. [mzwiessele] - -* Mrd corrections. [mzwiessele] - -* Version change (early beta, do not change until everythin works. [Max Zwiessele] - -* Fixed the SCG optimizer, thanks to Yarin Gal. [James Hensman] - -* Version now 48. [Max Zwiessele] - -* Version update. [Max Zwiessele] - -* Merge branch 'master' of github.com:SheffieldML/GPy. [Max Zwiessele] - -* Pickling now allways binary as well as protocol -1. [Max Zwiessele] - -* Pickling now allways binary as well as protocol -1. [Max Zwiessele] - -* Using lbfgs algorithm from scipy.minimize, starting to convert all optimizers to minimize format. [Max Zwiessele] - -* Windows -.- [Max Zwiessele] - -* Versions update. [Max Zwiessele] - -* Image is a PIL requirement and should only be imported when actually using it. [Max Zwiessele] - -* Plot handling greatly improved for latent space visualizations. [Max Zwiessele] - -* Version file added. [Max Zwiessele] - -* Fixed Ctrl-C behaviour on Windows. [Nicolo Fusi] - -* Merge branch 'master' of github.com:SheffieldML/GPy. [Nicolo Fusi] - -* Fixed come path issues in sympykern. [James Hensman] - -* Rename and redoc. [Alan Saul] - -* Moving imports, attempting to update RTD. [Alan Saul] - -* Changed initalise_latent to take lower of init=PCA and corrected import. [Alan Saul] - -* Change order of imports for RTD. [Alan Saul] - -* Merge branch 'devel' [Alan Saul] - -* Merge branch 'master' into devel. [Alan Saul] - -* Removed variational.py. [Alan Saul] - -* Fixed plot_latent failure. [Alan Saul] - -* Ignore example tests. [Alan Saul] - -* Removed yes pipe for travis. [Alan Saul] - -* Seems to handle without answering now. [Alan Saul] - -* Reverse travis to see what it asks for. [Alan Saul] - -* Fixed some tests. [Alan Saul] - -* Merged and fixed conflict in ODE_UY.py. [Alan Saul] - -* Merge completed. [Max Zwiessele] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [mu] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Andreas] - -* Small changes in svigp. [Andreas] - -* ODE UY dkdtheta. [mu] - -* UY dkdtheta. [mu] - -* UY dkdtheta. [mu] - -* BGPLVM with missing data. [Max Zwiessele] - -* Pca adjustements to lvm models. [Max Zwiessele] - -* Ppca added, ppca missing data not working yet. [Max Zwiessele] - -* Diagonal operations. [Max Zwiessele] - -* Subarray indexing. [Max Zwiessele] - -* Documenting. [Max Zwiessele] - -* Bug in ODE_UY fix. [Alan Saul] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] - -* Fixed the numerical quadrature, won't work with large f unless normalized. [Alan Saul] - -* Fixed lots of breaking tests, reduced step size for checkgrad to 1e-4 in tests (perhaps this should be global), added some missing attributes to data_resources.json. [Alan Saul] - -* Set warnings for truncated hessian, it has been noted that that by truncating we can have incorrect posteriors, though at convergence this should not be a problem, could be fixed by not using Cholsky as the decomposition as it cannot handle non-positive definite mats. [Alan Saul] - -* Merge pull request #90 from jamesmcm/master. [Alan Saul] - - Fixing ReadTheDocs reading docstrings, adding data_resources.json - -* Adding data_resources.json to setup data files. [James McMurray] - -* Testing modification for ReadTheDocs to stop docstring errors. [James McMurray] - -* Ensure_defaiult constraints in svigp. [James Hensman] - -* Fixed Ctrl-C behaviour on Windows. [Nicolo Fusi] - -* Removed print statements from config parser, commented out ODE kerns. [Nicolo Fusi] - -* Merge branch 'devel' [Nicolo Fusi] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [mu] - -* Ode UY. [mu] - -* Dk dparameter. [mu] - -* ODE_UY. [mu] - -* Merge branch 'devel' [Nicolo Fusi] - -* Added some more error checking for downloading datasets. [Neil Lawrence] - -* Fixed some bugs in mocap.py where errors weren't being raised when file format was incorrect and made datasets.py check for 404 errors which previously were occuring silently ... shhhhh. [Neil Lawrence] - -* Fixed bugs in cmu_mocap loader where cmu_url was missing and loading in mocap data twice in same session led to incorrect url through copy error. [Neil Lawrence] - -* Fixed examples tests, started changing datasets code which has a few bugs. [Alan Saul] - -* Minor changes to naming of signitures. [Alan Saul] - -* Changed more examples to accept optimize and plot. [Alan Saul] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] - -* Added comments for models module and adjusted setup. [Max Zwiessele] - -* Merge branch 'naniny' into devel. [Max Zwiessele] - -* Rename _models to models_modules to include in doc. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Some tidying in the regression examples. [James Hensman] - -* Added optimize and plot for classification, non_gaussian and stochastic examples. [Alan Saul] - -* Fixed gp_base and svigp for sampling (doesn't use it but needs the arguments) [Alan Saul] - -* Added constant to Z_tilde, now log likelihoods are equal! [Alan Saul] - -* Changed some parameters of the laplace, tidied up examples. [Alan Saul] - -* Dimensionality reduction examples updated with optimize, plot and verbose. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Changing the seed seems to fix Alan's bug. [James Hensman] - -* Fixed symmetry in checkgrad issue. [James Hensman] - -* Reverted the brent optimisation in laplace. [James Hensman] - - (For the 1D linesearch using Brent) - -* Improved detectino of sympy. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Fixed exception handling bug in GPy/util/linalg.py:29. [Teo de Campos] - -* Argghdfklg. [James Hensman] - -* Better warings for cathcing of blaslib detection. [James Hensman] - -* Changeing models to _models in setup.py. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] - -* Fixed step size for likelihood tests and allowed randomizing of laplace. [Alan Saul] - -* Fixed student_t approximation demo and changed convergence critera to difference of f. [Alan Saul] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] - -* Added cfg file to manfiest and package_data. [Alan Saul] - -* Dimensionality reduction example (oil) updated. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Removed ipdb statement from kern, cleaned up some nasty whitespace. [James Hensman] - -* More readme. [James Hensman] - -* More readme stuff. [James Hensman] - -* More readme edits. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Minor edits to the README. [James Hensman] - -* Gradient checker comments and import updates. [Max Zwiessele] - -* Gradientchecker added as a model. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Push minor fix to eq_sympy kernel test. [Neil Lawrence] - -* Added some tips to the readme. [James Hensman] - -* Fixed import errors in tests. [Max Zwiessele] - -* Sympykern kern_tests now passing, code is inefficient but should be numerically stable. [Neil Lawrence] - -* Modified to improve part of stability, gradient checks still passing. [Neil Lawrence] - -* Added gradient of sympy kernel, seems to pass tests, but know it's not numerically stable. Checking in before making numerically stable. [Neil Lawrence] - -* Fixed test in kern.py to request correct output dim for multioutput covariances. [Neil Lawrence] - -* ODE_UY. [mu] - -* Fixing up the blas detectino in linalg. [James Hensman] - -* Removing ipdb statements. [James Hensman] - -* Lots of medding with the likelihoods to get the tests working. the tests still don;t work. [James Hensman] - -* Formatting docstring. [James Hensman] - -* Changed nasty whitespace. [James Hensman] - -* Eq_ode1 working but test failing? [Neil Lawrence] - -* Added eq_ode1 to constructors.py. [Neil Lawrence] - -* Fixed bug in sympy kernel and added sympolic.py back into utils __init__.py. [Neil Lawrence] - -* Merge with James's changes. [Neil Lawrence] - -* Merge. [James Hensman] - -* Removed some sympy stuff. [James Hensman] - -* Merge with James's changes. [Neil Lawrence] - -* Committing change for master check out. [Neil Lawrence] - -* Skipping crossterm tests instead of expected failure. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Added a path for the data resources. not all users will be working in the GPy directory. [James Hensman] - -* Moved data resource information to a json file. [Neil Lawrence] - -* Bug fix for single output sympy kernel. [Neil Lawrence] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [mu] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] - -* Fixed problem in warping. [Nicolo Fusi] - -* Constructor and init for ODE_UY. [mu] - -* Working eq_ode1 in sympy now. [Neil Lawrence] - -* Dim reduction imports. [Max Zwiessele] - -* Testing imports update and expected failure for crossterms. [Max Zwiessele] - -* Rename models to _models and import models in models.py. [Max Zwiessele] - -* Psistattests update. [Max Zwiessele] - -* Updated crossterms, rbf x any not working yet (derivatives) [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Weird merge. [James Hensman] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] - -* Part implementation of ode_eq functionality. Not yet numerically stable or efficient (some horrible use of cut and paste to get things working ...) [Neil Lawrence] - -* A trial namespace renaming. [James Hensman] - -* Better handling of missing config files. [James Hensman] - -* Debugging the config paths. [James Hensman] - -* Allowing the passing of 1D X to a GP. with warning of course. [James Hensman] - -* More fiddling with the windows path for config. [James Hensman] - - Where is the windows guru? out playing beach volley? - -* Changed how we search for config files on windows. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Fixed up symmetric kern. [James Hensman] - -* Half way through crossterm objective. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Added block matrix utility. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Added **likelihood_params to predictive_values. [Ricardo] - -* Changes in plot function: sampling vs numerical approximation. [Ricardo] - -* Adding docstring for symmetric kern. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Bug fixed in numerical approx. to the predictive variance. [Ricardo] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] - -* Numerical predictions fixed, sampling predictions are not working. [Ricardo] - -* Predictive_mean and predictive_variance now use gp_var as a parameter, rather than gp_std. [Ricardo] - -* Fixed product kern get and set state. [James Hensman] - -* Added getstate/setstate for product kernel. [James Hensman] - -* In the middle of crossterms. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* 2D plots fixed. [Ricardo] - -* Passing **noise_args into predictive_values. [Ricardo] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] - -* Missing term in the likelihood. [Ricardo] - -* Reverted broken kern. [Max Zwiessele] - -* Added variational distribution for latent space. [Max Zwiessele] - -* BGPLVM test for crossterms. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Even more data plotting. [James Hensman] - -* Fixed plotting isue with plot_f. [James Hensman] - -* Fixed the dpotrs use.. [Alan Saul] - -* Added dpotrs instead of cho_solve. [Alan Saul] - -* Removed ipython dependency from kern. [Alan Saul] - -* Sped up sampling a lot for student t, bernoulli and poisson, added sampling for gaussian and exponential (untested) [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' [Alan Saul] - -* Ignoring examples tests again. [Alan Saul] - -* Added sampling to student_t noise distribution, very slow and is possible to speed up. predictive mean analytical and variance need checking. [Alan Saul] - -* Tidying up and fixed objective being vector. [Alan Saul] - -* Added sampling for predictive quantiles and also mean and variance where necessary. [Alan Saul] - -* Rederived gamma distribution. [Alan Saul] - -* Added derivatives for poisson and a couple of examples, need to fix for EP. [Alan Saul] - -* Merged with devel. [Alan Saul] - -* Reimplemented gradients for exponential, seems to work for laplace now, needs a visual test though. [Alan Saul] - -* Was a bug in the examples_tests.py, fixed and added brendan faces to ignore list. [Alan Saul] - -* Minor clean up. [Alan Saul] - -* Removed unnecessary laplace examples. [Alan Saul] - -* Updated laplace example to use predictive density aswell as RMSE. [Alan Saul] - -* Added log predictive density, ln p(y*|D) [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' [Alan Saul] - -* Updated boston tests (more folds, allow a bias as the datasets are not normalized once split) and more folds. Tweaked some laplace line search parameters, added basis tests for ep. [Alan Saul] - -* Fixed bug in gradient checker where it worked differently given a integer parameter to a float. [Alan Saul] - -* Removed derivatives of variance wrt gp and derivatives of means with respect to gp from noise models. [Alan Saul] - -* Tore out code no longer used from noise_distributions due to rewriting using quadrature. [Alan Saul] - -* Added numerical mean and variance with quadrature, about to clean up. [Alan Saul] - -* Merge branch 'master' into merge_branch. [Alan Saul] - -* Changed the gradients (perhaps for the worse) [Alan Saul] - -* A few typos. [Alan Saul] - -* Gaussian likelihood errors, still not working. [Alan Saul] - -* Added gaussian checker and gaussian likelihood, not checkgrading yet. [Alan Saul] - -* Started adding gaussian sanity checker. [Alan Saul] - -* Got rid of some overdoing the approximation. [Alan Saul] - -* Started adding gaussian likelihood, changed round preloading old_a. [Alan Saul] - -* Trying to debug kernel parameters learning (fails even when noise fixed) may be some instablility, seems like it can get it if it starts close. [Alan Saul] - -* Fixed 2*variance plotting instead of 2*std plotting, tidied up. [Alan Saul] - -* Changed incorrect naming. [Alan Saul] - -* Reparameratised in terms of sigma2. [Alan Saul] - -* Playing trying to find what makes it want to go so low. [Alan Saul] - -* Fixed bug where B wasn't refering to current f location. [Alan Saul] - -* Everything seems to be gradchecking again. [Alan Saul] - -* Added minimizer for finding f, doesn't help. [Alan Saul] - -* Now checkgrads a lot more of the time, but still fails in optimisation, seems also odd that when parameter is fixed kernel parameters go to infinity. [Alan Saul] - -* Added another optimisation which doesn't use gradients. Seems like F is almost always found, but Y can be off, suggesting that Wi__Ki_W is wrong, maybe W? [Alan Saul] - -* Trying to fix optimisation problem, fixed a few bugs but still fails at very low noise. [Alan Saul] - -* Starting to fiddle with mode finding code. [Alan Saul] - -* Fixed a sign wrong, now gradchecks weirdly only above certain points. [Alan Saul] - -* Now gradchecks everytime but student_t fit is bad, noise is underestimated by a long way. [Alan Saul] - -* Checkgrads with explicit and implicit components half the time. [Alan Saul] - -* About to input new derivations for Z's... [Alan Saul] - -* Took out all the asserts and using pure broadcasting method of diagonal now. [Alan Saul] - -* Made it use the fact that W is diagonal and put assertions in to ensure that the results are the same. [Alan Saul] - -* Broken it by getting rid of squeeze, but now working on making it faster using proper vector multiplciation for diagonals. [Alan Saul] - -* Made more numerically stable in a hope that it will work and I will find a bug... [Alan Saul] - -* Lots of name changing and went through all likelihood gradients again. [Alan Saul] - -* Ripped out all things Laplace parameter estimation, starting again with new tactic. [Alan Saul] - -* About to rip out old chain rule method of learning gradients. [Alan Saul] - -* Trying to fix dL_dytil gradient. [Alan Saul] - -* Changed name. [Alan Saul] - -* FIXED DYTIL_DFHAT. [Alan Saul] - -* Workong on doing explicit gradients. [Alan Saul] - -* Gradients almost there for dytil_dfhat, diagonal terms are right. [Alan Saul] - -* Merged with devel. [Alan Saul] - -* Still getting closer to grads for likelihood. [Alan Saul] - -* Almost have likelihood gradients working but kernels still way off. [Alan Saul] - -* Working on putting callback to update laplace in callback. [Alan Saul] - -* Seem to have gradients much closer now. [Alan Saul] - -* Scale and switch KW+I. [Alan Saul] - -* Merged with upstream. [Alan Saul] - -* Added a debug examples. [Alan Saul] - -* Merging. [Alan Saul] - -* Merged with master. [Alan Saul] - -* Plotting problematic kernel. [Alan Saul] - -* Adding gradients, shapes starting to make sense. [Alan Saul] - -* Attempted to introduce gradient methods, won't work yet I doubt. [Alan Saul] - -* Merge remote-tracking branch 'upstream/devel' [Alan Saul] - -* Merged likelihood functions. [Alan Saul] - -* Should be working now, needed to change relative path names. [Alan Saul] - -* Merge branch 'merge_trial' [Alan Saul] - -* Merge branch 'old_repo' into merge_trial. [Alan Saul] - -* Make directory structure match that of GPy. [Alan Saul] - -* Tidy up comments. [Alan Saul] - -* Merged in the GPy upstream. [Alan Saul] - -* Merged in branch which had old_repo merged in. [Alan Saul] - -* Adding weibull likelihood, requires 'extra_data' to be passed to likelihood, i.e. the censoring information. [Alan Saul] - -* Fixed the z scalings. [Alan Saul] - -* Fixed laplace approximation and made more numerically stable with cholesky decompositions, and commented. [Alan Saul] - -* Stabalised most of the algorithm (apart from the end inversion which is impossible) [Alan Saul] - -* Added timing and realised mdot can be faster as its almost always a diagonal matrix its multiplying with. [Alan Saul] - -* Got the mode finding without computing Ki. [Alan Saul] - -* Fixed broadcasting bug, rasm now appears to work. [Alan Saul] - -* Still working on rasmussen, link function needs vectorizing I think. [Alan Saul] - -* Tidying up. [Alan Saul] - -* Added predicted values for student t, works well. [Alan Saul] - -* Working laplace, just needs predictive values. [Alan Saul] - -* Seemed to be working, now its not. [Alan Saul] - -* Changing definitions again... [Alan Saul] - -* Worked out in terms of W, needs gradients implementing. [Alan Saul] - -* Just breaking some things... [Alan Saul] - -* Following naming convention better, lots of inverses which should be able to get rid of one or two, unsure if it works. [Alan Saul] - -* Got an idea of how to implement! written in docs. [Alan Saul] - -* Trying to 'debug' [Alan Saul] - -* Got most of laplace approximation working. [Alan Saul] - -* Added some comments. [Alan Saul] - -* Initial commit, setting up the laplace approximation for a student t. [Alan Saul] - -* Initial commit. [James Hensman] - -* Use bfgs for laplace instead. [Alan Saul] - -* Moved transf_data to make data -1 or 1 from 0 or 1 for bernoulli with probit into the analytical moment match (but it 10% slower), needs removing from epmixednoise. [Alan Saul] - -* Changed naming from old derivatives of likelihoods to new ones in noise distributions. [Alan Saul] - -* Fixed breakage of dvar, tidied up to make more efficient. [Alan Saul] - -* Doc stringing. [Alan Saul] - -* Added quadrature numerical moment matching (but not predictive yet) [Alan Saul] - -* Fixed a few laplace bits. [Alan Saul] - -* Refactored gradients wrt parameters slightly, need to future proof against _get_param_names() disappearing. [Alan Saul] - -* Added more options to generic tests (constraining link function values as bernoulli requies R^{0,1}) and implemented new gradients for bernoulli. [Alan Saul] - -* Rename Binomial to Bernoulli (maybe generalise it with the constant later, but tilted distribution may change) [Alan Saul] - -* Added pdf_link's for gaussian and student t, added third derivatives for transformations and tests for them. [Alan Saul] - -* Renamed laplace_tests to likelihoods_tests. [Alan Saul] - -* Tidying up laplace_tests.py. [Alan Saul] - -* Fixed some bugs, added third derivative for log transformation, and did some doccing. [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Still tidying up, laplace now working again, gaussian and student_t likelihoods now done. [Alan Saul] - -* Started on chaining, must remember to chain _laplace_gradients aswell! [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Finished tearing gaussian noise down, time for student t. [Alan Saul] - -* Beginning to merge lik_functions and derivatives with richardos. [Alan Saul] - -* Docs. [Alan Saul] - -* Removed fit as it is unused. [Alan Saul] - -* More doc strings. [Alan Saul] - -* Doccing and testing for D dimensional input (not multiple dimensional Y yet) [Alan Saul] - -* Tidying up a lot, works for 1D, need to check for more dimensions. [Alan Saul] - -* Tidied up laplace. [Alan Saul] - -* Integrated Laplace and merged Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - - Conflicts: - GPy/core/gp.py - GPy/likelihoods/__init__.py - GPy/likelihoods/likelihood_functions.py - GPy/likelihoods/link_functions.py - -* Fixed white variance. [Alan Saul] - -* Boston housing works (apart from variance of student t is not valid below 2) [Alan Saul] - -* Tests setup but not fitting properly yet. [Alan Saul] - -* Changed the examples (started boston data) and increased tolerance of finding fhat. [Alan Saul] - -* Added some stability and tidied up. [Alan Saul] - -* Tidying up. [Alan Saul] - -* Student t likelihood function checkgrads (summed gradients wrt to sigma2), maybe some numerical instability in laplace. [Alan Saul] - -* Now checkgrads for gaussian, and ALMOST for student t. [Alan Saul] - -* All gradients now gradcheck. [Alan Saul] - -* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] - -* Refactored tests. [Alan Saul] - -* Tidied up grad checking. [Alan Saul] - -* Added tests and fixed some naming. [Alan Saul] - -* Modified gradient_checker to allow for variable 'f' [Alan Saul] - -* Renamed some things, made some small (incorrect) gradient changes, generalised the gp regression for any likelihood, and added a place holder link function waiting for Richardos changes. [Alan Saul] - -* Removed unneeded dependency. [Alan Saul] - -* Merged GP models. [Alan Saul] - -* Dragged likelihood_function changes in. [Alan Saul] - -* Checked out relavent files. [Alan Saul] - -* Merged in real gpy. [Alan Saul] - -* Empty branch. [Alan Saul] - -* SPELLAFSDIUN. [Max Zwiessele] - -* Fixed up plotting in sparse_gp also. [James Hensman] - -* Fixed up the plotting. [James Hensman] - -* Fixed up plot in GP_base. [James Hensman] - -* Started changing the plotting in examples to remove plot_single_output. [James Hensman] - -* General tidying in models. [James Hensman] - -* Improved docstrings in svigp. [James Hensman] - -* Some tidying in gp.py. [James Hensman] - -* Docstrings and removal of duplicated plotting code in gp_base. [James Hensman] - -* Turned omp off by default as discussed. [James Hensman] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] - -* Added configuration file. [Nicolò Fusi] - - this was done to solve the OpenMP problem on Windows/mac, but I think it - is useful in general. All unit tests pass except the sympy kern ones. - -* Added xw_pen data. [Neil Lawrence] - -* Added xw_pen data. [Neil Lawrence] - -* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] - -* Basic sim code functional. [Neil Lawrence] - -* Minor change in tutorial. [mu] - -* Added link to user mailing list. [James Hensman] - - -## v0.6.0 (2014-11-21) - -### Other - * Small random perturbations in kernel tests helps with the symmetry gradcheck bug. [James Hensman] * More cooooooopyrighting. [James Hensman] @@ -7398,8 +6575,841 @@ * Merged dimen reduction. [Max Zwiessele] +* Domain and trtansformations namespace prettyfying. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into params. [Max Zwiessele] + +* Tests updated. [Max Zwiessele] + +* Dim reduction examples Q= > input_dim= [Max Zwiessele] + +* Numpy non hashable AHHHHHH. [Max Zwiessele] + +* Dont print brackets in transformations. [Max Zwiessele] + +* Parameterized first beta test. [Max Zwiessele] + +* Merge branch 'devel' into params. [Max Zwiessele] + +* Cross term testing switched on. [Max Zwiessele] + +* Comment linear x linear for testing purposes. [Max Zwiessele] + +* Parameter_testing. [Max Zwiessele] + +* Index operations now work on flattened indices. [Max Zwiessele] + +* Unoptimized parameter, still slower than current implementation. [Max Zwiessele] + +* Ndarray subclass cleaned up. [Max Zwiessele] + +* Subclassing ndarray almost functional. [Max Zwiessele] + +* Parameters ndarray, stuck at using strides for transformations. [Max Zwiessele] + +* Transformations are singletons now, weak refs for memory managment. [Max Zwiessele] + +* Almost there with array inheriting. [Max Zwiessele] + +* With subclassing ndarray, current_slice problems not solved... [Max Zwiessele] + +* Without inheriting from numpy.ndarray. ndarray functionality missing. [Max Zwiessele] + +* NegativeLogexp Pep8ted. [Max Zwiessele] + +* Index operations finalized. [Max Zwiessele] + +* Added index_operations and deleted them from paramter. [Max Zwießele] + +* Added parameter files - Alan. [Max Zwiessele] + +* Transformations singleton. [Max Zwiessele] + +* Merge branch 'devel' into params. [Max Zwiessele] + + Conflicts: + GPy/core/transformations.py + GPy/kern/parts/kernpart.py + +* Parameterization changes take a while. [Max Zwiessele] + +* Correcterd minor errors (imports etc) [Max Zwiessele] + +* Pep8'ed transformations module. [Max Zwiessele] + +* Merge pull request #148 from martinsch/normalization_fix. [James Hensman] + +* Normalization: avoid division by zero for constant feature dimensions. [mschiegg] + +* Merge pull request #160 from slinderman/master. [James Hensman] + + Removing set of numpy random seed + + Great spot! We're just about to relase the next iteratino of GPy, we'll make sure it happens there too. + + Thanks. + +* Removing set of numpy random seed. [Scott Linderman] + +* Removed unnecessary spaces from citation. [Nicolo Fusi] + +* Added a way to cite. [Nicolo Fusi] + +* Modified logexp transformation to prevent it returning zero when argument is under -36. [Neil Lawrence] + +* Version change. [Max Zwiessele] + +* Dim reduction examples clearer and init not as much black magic anymore. [Max Zwiessele] + +* Plot_latent now shows selected inputs, even after switching dimensions. [Max Zwiessele] + +* Added hapmap3 as dataset. [Max Zwiessele] + +* Sparse gp stability improved. [Max Zwiessele] + +* HapMap3 dataset added. [Max Zwiessele] + +* Added hapmap download, need to put in data preprocessing for actual usability. [Max Zwiessele] + +* Dim reduction examples. [mzwiessele] + +* Dim reduction examples. [mzwiessele] + +* Bgplvm steepest gradient map update. [mzwiessele] + +* Bgplvm steepest gradient map update. [mzwiessele] + +* Merge branch 'master' of github.com:SheffieldML/GPy. [mzwiessele] + +* Update README.md with funding acknowledgements. [Neil Lawrence] + +* Plotting bug for bgplvm fixed. [mzwiessele] + +* Scg optimizer scale bounds back to 1e-15. [mzwiessele] + +* Parameterized: added warning switch. [mzwiessele] + +* Mrd corrections. [mzwiessele] + +* Version change (early beta, do not change until everythin works. [Max Zwiessele] + +* Fixed the SCG optimizer, thanks to Yarin Gal. [James Hensman] + +* Version now 48. [Max Zwiessele] + +* Version update. [Max Zwiessele] + +* Merge branch 'master' of github.com:SheffieldML/GPy. [Max Zwiessele] + +* Pickling now allways binary as well as protocol -1. [Max Zwiessele] + +* Pickling now allways binary as well as protocol -1. [Max Zwiessele] + +* Using lbfgs algorithm from scipy.minimize, starting to convert all optimizers to minimize format. [Max Zwiessele] + +* Windows -.- [Max Zwiessele] + +* Versions update. [Max Zwiessele] + +* Image is a PIL requirement and should only be imported when actually using it. [Max Zwiessele] + +* Plot handling greatly improved for latent space visualizations. [Max Zwiessele] + +* Version file added. [Max Zwiessele] + +* Fixed Ctrl-C behaviour on Windows. [Nicolo Fusi] + +* Merge branch 'master' of github.com:SheffieldML/GPy. [Nicolo Fusi] + +* Fixed come path issues in sympykern. [James Hensman] + +* Rename and redoc. [Alan Saul] + +* Moving imports, attempting to update RTD. [Alan Saul] + +* Changed initalise_latent to take lower of init=PCA and corrected import. [Alan Saul] + +* Change order of imports for RTD. [Alan Saul] + +* Merge branch 'devel' [Alan Saul] + +* Merge branch 'master' into devel. [Alan Saul] + +* Removed variational.py. [Alan Saul] + +* Fixed plot_latent failure. [Alan Saul] + +* Ignore example tests. [Alan Saul] + +* Removed yes pipe for travis. [Alan Saul] + +* Seems to handle without answering now. [Alan Saul] + +* Reverse travis to see what it asks for. [Alan Saul] + +* Fixed some tests. [Alan Saul] + +* Merged and fixed conflict in ODE_UY.py. [Alan Saul] + +* Merge completed. [Max Zwiessele] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [mu] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Andreas] + +* Small changes in svigp. [Andreas] + +* ODE UY dkdtheta. [mu] + +* UY dkdtheta. [mu] + +* UY dkdtheta. [mu] + +* BGPLVM with missing data. [Max Zwiessele] + +* Pca adjustements to lvm models. [Max Zwiessele] + +* Ppca added, ppca missing data not working yet. [Max Zwiessele] + +* Diagonal operations. [Max Zwiessele] + +* Subarray indexing. [Max Zwiessele] + +* Documenting. [Max Zwiessele] + +* Bug in ODE_UY fix. [Alan Saul] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] + +* Fixed the numerical quadrature, won't work with large f unless normalized. [Alan Saul] + +* Fixed lots of breaking tests, reduced step size for checkgrad to 1e-4 in tests (perhaps this should be global), added some missing attributes to data_resources.json. [Alan Saul] + +* Set warnings for truncated hessian, it has been noted that that by truncating we can have incorrect posteriors, though at convergence this should not be a problem, could be fixed by not using Cholsky as the decomposition as it cannot handle non-positive definite mats. [Alan Saul] + +* Merge pull request #90 from jamesmcm/master. [Alan Saul] + + Fixing ReadTheDocs reading docstrings, adding data_resources.json + +* Adding data_resources.json to setup data files. [James McMurray] + +* Testing modification for ReadTheDocs to stop docstring errors. [James McMurray] + +* Ensure_defaiult constraints in svigp. [James Hensman] + +* Fixed Ctrl-C behaviour on Windows. [Nicolo Fusi] + +* Removed print statements from config parser, commented out ODE kerns. [Nicolo Fusi] + +* Merge branch 'devel' [Nicolo Fusi] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [mu] + +* Ode UY. [mu] + +* Dk dparameter. [mu] + +* ODE_UY. [mu] + +* Merge branch 'devel' [Nicolo Fusi] + +* Added some more error checking for downloading datasets. [Neil Lawrence] + +* Fixed some bugs in mocap.py where errors weren't being raised when file format was incorrect and made datasets.py check for 404 errors which previously were occuring silently ... shhhhh. [Neil Lawrence] + +* Fixed bugs in cmu_mocap loader where cmu_url was missing and loading in mocap data twice in same session led to incorrect url through copy error. [Neil Lawrence] + +* Fixed examples tests, started changing datasets code which has a few bugs. [Alan Saul] + +* Minor changes to naming of signitures. [Alan Saul] + +* Changed more examples to accept optimize and plot. [Alan Saul] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] + +* Added comments for models module and adjusted setup. [Max Zwiessele] + +* Merge branch 'naniny' into devel. [Max Zwiessele] + +* Rename _models to models_modules to include in doc. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Some tidying in the regression examples. [James Hensman] + +* Added optimize and plot for classification, non_gaussian and stochastic examples. [Alan Saul] + +* Fixed gp_base and svigp for sampling (doesn't use it but needs the arguments) [Alan Saul] + +* Added constant to Z_tilde, now log likelihoods are equal! [Alan Saul] + +* Changed some parameters of the laplace, tidied up examples. [Alan Saul] + +* Dimensionality reduction examples updated with optimize, plot and verbose. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Changing the seed seems to fix Alan's bug. [James Hensman] + +* Fixed symmetry in checkgrad issue. [James Hensman] + +* Reverted the brent optimisation in laplace. [James Hensman] + + (For the 1D linesearch using Brent) + +* Improved detectino of sympy. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Fixed exception handling bug in GPy/util/linalg.py:29. [Teo de Campos] + +* Argghdfklg. [James Hensman] + +* Better warings for cathcing of blaslib detection. [James Hensman] + +* Changeing models to _models in setup.py. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] + +* Fixed step size for likelihood tests and allowed randomizing of laplace. [Alan Saul] + +* Fixed student_t approximation demo and changed convergence critera to difference of f. [Alan Saul] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Alan Saul] + +* Added cfg file to manfiest and package_data. [Alan Saul] + +* Dimensionality reduction example (oil) updated. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Removed ipdb statement from kern, cleaned up some nasty whitespace. [James Hensman] + +* More readme. [James Hensman] + +* More readme stuff. [James Hensman] + +* More readme edits. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Minor edits to the README. [James Hensman] + +* Gradient checker comments and import updates. [Max Zwiessele] + +* Gradientchecker added as a model. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Push minor fix to eq_sympy kernel test. [Neil Lawrence] + +* Added some tips to the readme. [James Hensman] + +* Fixed import errors in tests. [Max Zwiessele] + +* Sympykern kern_tests now passing, code is inefficient but should be numerically stable. [Neil Lawrence] + +* Modified to improve part of stability, gradient checks still passing. [Neil Lawrence] + +* Added gradient of sympy kernel, seems to pass tests, but know it's not numerically stable. Checking in before making numerically stable. [Neil Lawrence] + +* Fixed test in kern.py to request correct output dim for multioutput covariances. [Neil Lawrence] + +* ODE_UY. [mu] + +* Fixing up the blas detectino in linalg. [James Hensman] + +* Removing ipdb statements. [James Hensman] + +* Lots of medding with the likelihoods to get the tests working. the tests still don;t work. [James Hensman] + +* Formatting docstring. [James Hensman] + +* Changed nasty whitespace. [James Hensman] + +* Eq_ode1 working but test failing? [Neil Lawrence] + +* Added eq_ode1 to constructors.py. [Neil Lawrence] + +* Fixed bug in sympy kernel and added sympolic.py back into utils __init__.py. [Neil Lawrence] + +* Merge with James's changes. [Neil Lawrence] + +* Merge. [James Hensman] + +* Removed some sympy stuff. [James Hensman] + +* Merge with James's changes. [Neil Lawrence] + +* Committing change for master check out. [Neil Lawrence] + +* Skipping crossterm tests instead of expected failure. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Added a path for the data resources. not all users will be working in the GPy directory. [James Hensman] + +* Moved data resource information to a json file. [Neil Lawrence] + +* Bug fix for single output sympy kernel. [Neil Lawrence] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [mu] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] + +* Fixed problem in warping. [Nicolo Fusi] + +* Constructor and init for ODE_UY. [mu] + +* Working eq_ode1 in sympy now. [Neil Lawrence] + +* Dim reduction imports. [Max Zwiessele] + +* Testing imports update and expected failure for crossterms. [Max Zwiessele] + +* Rename models to _models and import models in models.py. [Max Zwiessele] + +* Psistattests update. [Max Zwiessele] + +* Updated crossterms, rbf x any not working yet (derivatives) [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Weird merge. [James Hensman] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] + +* Part implementation of ode_eq functionality. Not yet numerically stable or efficient (some horrible use of cut and paste to get things working ...) [Neil Lawrence] + +* A trial namespace renaming. [James Hensman] + +* Better handling of missing config files. [James Hensman] + +* Debugging the config paths. [James Hensman] + +* Allowing the passing of 1D X to a GP. with warning of course. [James Hensman] + +* More fiddling with the windows path for config. [James Hensman] + + Where is the windows guru? out playing beach volley? + +* Changed how we search for config files on windows. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Fixed up symmetric kern. [James Hensman] + +* Half way through crossterm objective. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Added block matrix utility. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Added **likelihood_params to predictive_values. [Ricardo] + +* Changes in plot function: sampling vs numerical approximation. [Ricardo] + +* Adding docstring for symmetric kern. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Bug fixed in numerical approx. to the predictive variance. [Ricardo] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] + +* Numerical predictions fixed, sampling predictions are not working. [Ricardo] + +* Predictive_mean and predictive_variance now use gp_var as a parameter, rather than gp_std. [Ricardo] + +* Fixed product kern get and set state. [James Hensman] + +* Added getstate/setstate for product kernel. [James Hensman] + +* In the middle of crossterms. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* 2D plots fixed. [Ricardo] + +* Passing **noise_args into predictive_values. [Ricardo] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] + +* Missing term in the likelihood. [Ricardo] + +* Reverted broken kern. [Max Zwiessele] + +* Added variational distribution for latent space. [Max Zwiessele] + +* BGPLVM test for crossterms. [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Even more data plotting. [James Hensman] + +* Fixed plotting isue with plot_f. [James Hensman] + +* Fixed the dpotrs use.. [Alan Saul] + +* Added dpotrs instead of cho_solve. [Alan Saul] + +* Removed ipython dependency from kern. [Alan Saul] + +* Sped up sampling a lot for student t, bernoulli and poisson, added sampling for gaussian and exponential (untested) [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' [Alan Saul] + +* Ignoring examples tests again. [Alan Saul] + +* Added sampling to student_t noise distribution, very slow and is possible to speed up. predictive mean analytical and variance need checking. [Alan Saul] + +* Tidying up and fixed objective being vector. [Alan Saul] + +* Added sampling for predictive quantiles and also mean and variance where necessary. [Alan Saul] + +* Rederived gamma distribution. [Alan Saul] + +* Added derivatives for poisson and a couple of examples, need to fix for EP. [Alan Saul] + +* Merged with devel. [Alan Saul] + +* Reimplemented gradients for exponential, seems to work for laplace now, needs a visual test though. [Alan Saul] + +* Was a bug in the examples_tests.py, fixed and added brendan faces to ignore list. [Alan Saul] + +* Minor clean up. [Alan Saul] + +* Removed unnecessary laplace examples. [Alan Saul] + +* Updated laplace example to use predictive density aswell as RMSE. [Alan Saul] + +* Added log predictive density, ln p(y*|D) [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' [Alan Saul] + +* Updated boston tests (more folds, allow a bias as the datasets are not normalized once split) and more folds. Tweaked some laplace line search parameters, added basis tests for ep. [Alan Saul] + +* Fixed bug in gradient checker where it worked differently given a integer parameter to a float. [Alan Saul] + +* Removed derivatives of variance wrt gp and derivatives of means with respect to gp from noise models. [Alan Saul] + +* Tore out code no longer used from noise_distributions due to rewriting using quadrature. [Alan Saul] + +* Added numerical mean and variance with quadrature, about to clean up. [Alan Saul] + +* Merge branch 'master' into merge_branch. [Alan Saul] + +* Changed the gradients (perhaps for the worse) [Alan Saul] + +* A few typos. [Alan Saul] + +* Gaussian likelihood errors, still not working. [Alan Saul] + +* Added gaussian checker and gaussian likelihood, not checkgrading yet. [Alan Saul] + +* Started adding gaussian sanity checker. [Alan Saul] + +* Got rid of some overdoing the approximation. [Alan Saul] + +* Started adding gaussian likelihood, changed round preloading old_a. [Alan Saul] + +* Trying to debug kernel parameters learning (fails even when noise fixed) may be some instablility, seems like it can get it if it starts close. [Alan Saul] + +* Fixed 2*variance plotting instead of 2*std plotting, tidied up. [Alan Saul] + +* Changed incorrect naming. [Alan Saul] + +* Reparameratised in terms of sigma2. [Alan Saul] + +* Playing trying to find what makes it want to go so low. [Alan Saul] + +* Fixed bug where B wasn't refering to current f location. [Alan Saul] + +* Everything seems to be gradchecking again. [Alan Saul] + +* Added minimizer for finding f, doesn't help. [Alan Saul] + +* Now checkgrads a lot more of the time, but still fails in optimisation, seems also odd that when parameter is fixed kernel parameters go to infinity. [Alan Saul] + +* Added another optimisation which doesn't use gradients. Seems like F is almost always found, but Y can be off, suggesting that Wi__Ki_W is wrong, maybe W? [Alan Saul] + +* Trying to fix optimisation problem, fixed a few bugs but still fails at very low noise. [Alan Saul] + +* Starting to fiddle with mode finding code. [Alan Saul] + +* Fixed a sign wrong, now gradchecks weirdly only above certain points. [Alan Saul] + +* Now gradchecks everytime but student_t fit is bad, noise is underestimated by a long way. [Alan Saul] + +* Checkgrads with explicit and implicit components half the time. [Alan Saul] + +* About to input new derivations for Z's... [Alan Saul] + +* Took out all the asserts and using pure broadcasting method of diagonal now. [Alan Saul] + +* Made it use the fact that W is diagonal and put assertions in to ensure that the results are the same. [Alan Saul] + +* Broken it by getting rid of squeeze, but now working on making it faster using proper vector multiplciation for diagonals. [Alan Saul] + +* Made more numerically stable in a hope that it will work and I will find a bug... [Alan Saul] + +* Lots of name changing and went through all likelihood gradients again. [Alan Saul] + +* Ripped out all things Laplace parameter estimation, starting again with new tactic. [Alan Saul] + +* About to rip out old chain rule method of learning gradients. [Alan Saul] + +* Trying to fix dL_dytil gradient. [Alan Saul] + +* Changed name. [Alan Saul] + +* FIXED DYTIL_DFHAT. [Alan Saul] + +* Workong on doing explicit gradients. [Alan Saul] + +* Gradients almost there for dytil_dfhat, diagonal terms are right. [Alan Saul] + +* Merged with devel. [Alan Saul] + +* Still getting closer to grads for likelihood. [Alan Saul] + +* Almost have likelihood gradients working but kernels still way off. [Alan Saul] + +* Working on putting callback to update laplace in callback. [Alan Saul] + +* Seem to have gradients much closer now. [Alan Saul] + +* Scale and switch KW+I. [Alan Saul] + +* Merged with upstream. [Alan Saul] + +* Added a debug examples. [Alan Saul] + +* Merging. [Alan Saul] + +* Merged with master. [Alan Saul] + +* Plotting problematic kernel. [Alan Saul] + +* Adding gradients, shapes starting to make sense. [Alan Saul] + +* Attempted to introduce gradient methods, won't work yet I doubt. [Alan Saul] + +* Merge remote-tracking branch 'upstream/devel' [Alan Saul] + +* Merged likelihood functions. [Alan Saul] + +* Should be working now, needed to change relative path names. [Alan Saul] + +* Merge branch 'merge_trial' [Alan Saul] + +* Merge branch 'old_repo' into merge_trial. [Alan Saul] + +* Make directory structure match that of GPy. [Alan Saul] + +* Tidy up comments. [Alan Saul] + +* Merged in the GPy upstream. [Alan Saul] + +* Merged in branch which had old_repo merged in. [Alan Saul] + +* Adding weibull likelihood, requires 'extra_data' to be passed to likelihood, i.e. the censoring information. [Alan Saul] + +* Fixed the z scalings. [Alan Saul] + +* Fixed laplace approximation and made more numerically stable with cholesky decompositions, and commented. [Alan Saul] + +* Stabalised most of the algorithm (apart from the end inversion which is impossible) [Alan Saul] + +* Added timing and realised mdot can be faster as its almost always a diagonal matrix its multiplying with. [Alan Saul] + +* Got the mode finding without computing Ki. [Alan Saul] + +* Fixed broadcasting bug, rasm now appears to work. [Alan Saul] + +* Still working on rasmussen, link function needs vectorizing I think. [Alan Saul] + +* Tidying up. [Alan Saul] + +* Added predicted values for student t, works well. [Alan Saul] + +* Working laplace, just needs predictive values. [Alan Saul] + +* Seemed to be working, now its not. [Alan Saul] + +* Changing definitions again... [Alan Saul] + +* Worked out in terms of W, needs gradients implementing. [Alan Saul] + +* Just breaking some things... [Alan Saul] + +* Following naming convention better, lots of inverses which should be able to get rid of one or two, unsure if it works. [Alan Saul] + +* Got an idea of how to implement! written in docs. [Alan Saul] + +* Trying to 'debug' [Alan Saul] + +* Got most of laplace approximation working. [Alan Saul] + +* Added some comments. [Alan Saul] + +* Initial commit, setting up the laplace approximation for a student t. [Alan Saul] + +* Initial commit. [James Hensman] + +* Use bfgs for laplace instead. [Alan Saul] + +* Moved transf_data to make data -1 or 1 from 0 or 1 for bernoulli with probit into the analytical moment match (but it 10% slower), needs removing from epmixednoise. [Alan Saul] + +* Changed naming from old derivatives of likelihoods to new ones in noise distributions. [Alan Saul] + +* Fixed breakage of dvar, tidied up to make more efficient. [Alan Saul] + +* Doc stringing. [Alan Saul] + +* Added quadrature numerical moment matching (but not predictive yet) [Alan Saul] + +* Fixed a few laplace bits. [Alan Saul] + +* Refactored gradients wrt parameters slightly, need to future proof against _get_param_names() disappearing. [Alan Saul] + +* Added more options to generic tests (constraining link function values as bernoulli requies R^{0,1}) and implemented new gradients for bernoulli. [Alan Saul] + +* Rename Binomial to Bernoulli (maybe generalise it with the constant later, but tilted distribution may change) [Alan Saul] + +* Added pdf_link's for gaussian and student t, added third derivatives for transformations and tests for them. [Alan Saul] + +* Renamed laplace_tests to likelihoods_tests. [Alan Saul] + +* Tidying up laplace_tests.py. [Alan Saul] + +* Fixed some bugs, added third derivative for log transformation, and did some doccing. [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Still tidying up, laplace now working again, gaussian and student_t likelihoods now done. [Alan Saul] + +* Started on chaining, must remember to chain _laplace_gradients aswell! [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Finished tearing gaussian noise down, time for student t. [Alan Saul] + +* Beginning to merge lik_functions and derivatives with richardos. [Alan Saul] + +* Docs. [Alan Saul] + +* Removed fit as it is unused. [Alan Saul] + +* More doc strings. [Alan Saul] + +* Doccing and testing for D dimensional input (not multiple dimensional Y yet) [Alan Saul] + +* Tidying up a lot, works for 1D, need to check for more dimensions. [Alan Saul] + +* Tidied up laplace. [Alan Saul] + +* Integrated Laplace and merged Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + + Conflicts: + GPy/core/gp.py + GPy/likelihoods/__init__.py + GPy/likelihoods/likelihood_functions.py + GPy/likelihoods/link_functions.py + +* Fixed white variance. [Alan Saul] + +* Boston housing works (apart from variance of student t is not valid below 2) [Alan Saul] + +* Tests setup but not fitting properly yet. [Alan Saul] + +* Changed the examples (started boston data) and increased tolerance of finding fhat. [Alan Saul] + +* Added some stability and tidied up. [Alan Saul] + +* Tidying up. [Alan Saul] + +* Student t likelihood function checkgrads (summed gradients wrt to sigma2), maybe some numerical instability in laplace. [Alan Saul] + +* Now checkgrads for gaussian, and ALMOST for student t. [Alan Saul] + +* All gradients now gradcheck. [Alan Saul] + +* Merge remote-tracking branch 'gpy_real/devel' into merge_branch. [Alan Saul] + +* Refactored tests. [Alan Saul] + +* Tidied up grad checking. [Alan Saul] + +* Added tests and fixed some naming. [Alan Saul] + +* Modified gradient_checker to allow for variable 'f' [Alan Saul] + +* Renamed some things, made some small (incorrect) gradient changes, generalised the gp regression for any likelihood, and added a place holder link function waiting for Richardos changes. [Alan Saul] + +* Removed unneeded dependency. [Alan Saul] + +* Merged GP models. [Alan Saul] + +* Dragged likelihood_function changes in. [Alan Saul] + +* Checked out relavent files. [Alan Saul] + +* Merged in real gpy. [Alan Saul] + +* Empty branch. [Alan Saul] + +* SPELLAFSDIUN. [Max Zwiessele] + +* Fixed up plotting in sparse_gp also. [James Hensman] + +* Fixed up the plotting. [James Hensman] + +* Fixed up plot in GP_base. [James Hensman] + +* Started changing the plotting in examples to remove plot_single_output. [James Hensman] + +* General tidying in models. [James Hensman] + +* Improved docstrings in svigp. [James Hensman] + +* Some tidying in gp.py. [James Hensman] + +* Docstrings and removal of duplicated plotting code in gp_base. [James Hensman] + +* Turned omp off by default as discussed. [James Hensman] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] + +* Added configuration file. [Nicolò Fusi] + + this was done to solve the OpenMP problem on Windows/mac, but I think it + is useful in general. All unit tests pass except the sympy kern ones. + +* Added xw_pen data. [Neil Lawrence] + +* Added xw_pen data. [Neil Lawrence] + +* Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] + * Docstrinfs in kern.py. [James Hensman] +* Basic sim code functional. [Neil Lawrence] + * Updated sympy code, multioutput grad checks pass apart from wrt X. Similar problems with prediction as to sinc covariance, needs investigation. [Neil Lawrence] * Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] @@ -7410,10 +7420,6 @@ * Added olivetti faces data set. It required adding netpbmfile.py a bsd licensed pgm file reader from Christoph Gohlke, which doesn't seem to have a spearate installer. Also modified image_show to assume by default that array ordering is python instead of fortran. Modified brendan_faces demo to explicilty force fortran ordering. Notified Teo of change. [Neil Lawrence] -* Domain and trtansformations namespace prettyfying. [Max Zwiessele] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into params. [Max Zwiessele] - * Some fixes and changes to the sympykern. [Neil Lawrence] * Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] @@ -7442,18 +7448,6 @@ * Added first draft of functionality for multiple output sympy kernels. [Neil Lawrence] -* Tests updated. [Max Zwiessele] - -* Dim reduction examples Q= > input_dim= [Max Zwiessele] - -* Numpy non hashable AHHHHHH. [Max Zwiessele] - -* Dont print brackets in transformations. [Max Zwiessele] - -* Parameterized first beta test. [Max Zwiessele] - -* Merge branch 'devel' into params. [Max Zwiessele] - * Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Max Zwiessele] * Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel. [Neil Lawrence] @@ -7550,64 +7544,12 @@ * Added hetero back to the init. [James Hensman] -* Epsilon and power_ep now are parameters of update_likelihood. [Ricardo] - -* Crescent data example is better organized. [Ricardo] - -* Cross term testing switched on. [Max Zwiessele] - -* Comment linear x linear for testing purposes. [Max Zwiessele] - -* Parameter_testing. [Max Zwiessele] - -* Index operations now work on flattened indices. [Max Zwiessele] - -* Unoptimized parameter, still slower than current implementation. [Max Zwiessele] - -* Ndarray subclass cleaned up. [Max Zwiessele] - -* Subclassing ndarray almost functional. [Max Zwiessele] - -* Parameters ndarray, stuck at using strides for transformations. [Max Zwiessele] - -* Transformations are singletons now, weak refs for memory managment. [Max Zwiessele] - -* Almost there with array inheriting. [Max Zwiessele] - -* With subclassing ndarray, current_slice problems not solved... [Max Zwiessele] - -* Without inheriting from numpy.ndarray. ndarray functionality missing. [Max Zwiessele] - -* NegativeLogexp Pep8ted. [Max Zwiessele] - -* Index operations finalized. [Max Zwiessele] - -* Added index_operations and deleted them from paramter. [Max Zwießele] - -* Added parameter files - Alan. [Max Zwiessele] - -* Transformations singleton. [Max Zwiessele] - -* Merge branch 'devel' into params. [Max Zwiessele] - - Conflicts: - GPy/core/transformations.py - GPy/kern/parts/kernpart.py - * Merge pull request #77 from jamesmcm/devel. [James McMurray] Devel * Merge branch 'devel' of git://github.com/SheffieldML/GPy into devel. [James McMurray] -* Bug in prod-coreg kernels fixed, not in the most elegant way though. [Ricardo] - -* Disp=False in scipy optimizations. [Ricardo] - -* Function grep_model added, works like print model, but accepts regexp. [Ricardo] - -* Reverting error. [Ricardo] - * Rebuilt documentation. [James McMurray] * Changes to fix autodoc - need to test with ReadTheDocs still. [James McMurray] @@ -7616,6 +7558,18 @@ * Updated readme with instructions for compiling documentation, running unit tests. [James McMurray] +* Epsilon and power_ep now are parameters of update_likelihood. [Ricardo] + +* Crescent data example is better organized. [Ricardo] + +* Bug in prod-coreg kernels fixed, not in the most elegant way though. [Ricardo] + +* Disp=False in scipy optimizations. [Ricardo] + +* Function grep_model added, works like print model, but accepts regexp. [Ricardo] + +* Reverting error. [Ricardo] + * Normalize_Y is passed to core function. [Ricardo] * Redundant code commented. [Ricardo] @@ -7777,18 +7731,6 @@ * Fixed Alans checkgrad bug. [James Hensman] -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] - -* Working on the Poisson likelihood. [Ricardo] - -* Parameterization changes take a while. [Max Zwiessele] - -* Correcterd minor errors (imports etc) [Max Zwiessele] - -* Pep8'ed transformations module. [Max Zwiessele] - * Mrd_sim stable and deprecated. [Max Zwiessele] * Expectation test slicing. [Max Zwiessele] @@ -8113,6 +8055,10 @@ * Merge branch 'devel' into pickle. [Max Zwiessele] +* Pcikling? [Max Zwiessele] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] + * Fixed an import. [Teo de Campos] * Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] @@ -8121,31 +8067,53 @@ * Removed sympy import. [Nicolo Fusi] +* Added an include. [Teo de Campos] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] + * Added missing import in util.linalg. [Nicolo Fusi] * Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] - -* Merge remote-tracking branch 'origin/devel' into devel. [Ricardo] - -* Bug fix in the confusion matrix. [Ricardo] - * Removed sympy helpers from init. [Nicolo Fusi] +* Working on the Poisson likelihood. [Ricardo] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] + * Added init. [Nicolo Fusi] * Removed unnecessary gitignore line. [Nicolo Fusi] +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Ricardo] + * Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] +* Merging by hand... [James Hensman] + * Kernels are now consistent with pep8 and common reason. [Nicolo Fusi] -* Added an include. [Teo de Campos] +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] -* Merging by hand... [James Hensman] +* Fixed fixed kernel (aha!) [Nicolo Fusi] + +* Merge remote-tracking branch 'origin/devel' into devel. [Ricardo] + +* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] + +* Corrected minor bug in Brownian kernel. [Nicolas] + +* Comment import visual in visualize due to issues in Windows/OSX. [Neil Lawrence] + +* Mods to visualize and dimensionality to make stick demos work for summer school. [Neil Lawrence] + +* Changes to the efficiency of the sparse GP when there are many outputs. [James Hensman] + +* Bug fix in the confusion matrix. [Ricardo] + +* Minor change in tutorial. [mu] + +* Added link to user mailing list. [James Hensman] * Merge branch 'master' of github.com:SheffieldML/GPy. [James Hensman] @@ -8165,22 +8133,6 @@ * Changed manifest from docs to doc. [James Hensman] -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [Nicolo Fusi] - -* Merge branch 'devel' of github.com:SheffieldML/GPy into devel. [James Hensman] - -* Corrected minor bug in Brownian kernel. [Nicolas] - -* Comment import visual in visualize due to issues in Windows/OSX. [Neil Lawrence] - -* Mods to visualize and dimensionality to make stick demos work for summer school. [Neil Lawrence] - -* Changes to the efficiency of the sparse GP when there are many outputs. [James Hensman] - -* Fixed fixed kernel (aha!) [Nicolo Fusi] - -* Pcikling? [Max Zwiessele] - * Pypi release update. [Max Zwiessele] * Merge branch 'master' into devel. [Max Zwiessele] @@ -9499,6 +9451,11 @@ * Added fixed effect kernel. [Nicolo Fusi] + +## 0.2 (2013-03-13) + +### Other + * Merge branch 'master' of github.com:SheffieldML/GPy. [Nicolo Fusi] * Merge branch 'debug' [James Hensman]